PingPongPro: a tool for the detection of piRNA-mediated transposon-silencing in small RNA-Seq data.
Bioinformatics
; 35(2): 335-336, 2019 01 15.
Article
en En
| MEDLINE
| ID: mdl-29985981
ABSTRACT
Summary:
Piwi-interacting RNAs (piRNAs) are a class of small non-coding RNAs which guide endonucleases to mRNAs of actively transcribed transposons in order to prevent their translation. The resulting mRNA fragments induce a positive feedback loop (the 'ping-pong cycle'), which reinforces piRNA production and hence the transposon-silencing effect. PingPongPro is a command-line tool to scan small RNA-Seq data for signs of ping-pong cycle activity. It implements a novel algorithm that combines empirical probabilities in a multi-factor model to accurately identify transposons which are suppressed through the ping-pong cycle. Availability and implementation Source code, a user manual, and binaries for Microsoft Windows and Linux are available at https//github.com/suhrig/pingpongpro under the GPLv3 license. Supplementary information Supplementary data are available at Bioinformatics online.
Texto completo:
1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Programas Informáticos
/
Elementos Transponibles de ADN
/
Análisis de Secuencia de ARN
/
ARN Interferente Pequeño
Tipo de estudio:
Diagnostic_studies
/
Prognostic_studies
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2019
Tipo del documento:
Article
País de afiliación:
Alemania